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DhtWebServerV092_realtime.py
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# version 0.1 initial version
# version 0.2 updated comments
# version 0.3 added lastTandH for Homepage
# version 0.7 thermocouple graph added +K3 data added
# version 0.8 added form for tare submission
# version 0.9 updated tare to list and reorganise dictonary
# version 0.10 added export of tare to xml file
# version 0.11 added krios 5 -krios 6
# version 0.12 added krios 7 and Glacios
# version 0.16 added krios 1-7 and Glacios
# version 0.23 redid weblink for tem / hum
# version 0.38 redid merged all LN2 graphs in one proc
# version 0.39 add inset graphs and arrows
# version 0.40 updated uptime algorithm
# version 0.41 added maintenance
# version 0.44 added faciity voltage
# version 0.44 added uptime
# version 0.46 changed db access to once a minute for all data at once
# version 0.50 introduced array that buffers db data
# version 0.51 merged all graphs in one link
# version 0.52 cleaned up unused functions
# version 0.58 added EMI graphs
# version 0.60 restored uptime graphs
# version 0.63 added pH krios 5
# version 0.64 redesign uptime code and webpage
# version 0.72 redesign webpage. auto refresh uptime. emi integrated
# version 0.73 added up / down time editor
# version 0.78 added pH for Krios 7. Table is now complete. Algorithm can remove exept.
# version 0.81 removed EMI from email. Too many empty string errors
# version 0.82 added login form and classes
#from app import app
import smtplib, ssl
from email.mime.text import MIMEText
from email.mime.multipart import MIMEMultipart
import sqlite3, threading
import io, os.path, time
from queue import *
from sqlite3 import Error
from pathlib import Path
from matplotlib.backends.backend_agg import FigureCanvasAgg as FigureCanvas
from matplotlib.figure import Figure
from flask import Flask, render_template, send_file, make_response, request, flash, redirect
from matplotlib.ticker import MultipleLocator, FormatStrFormatter, AutoMinorLocator
from forms import LoginForm
###
class myThread (threading.Thread):
def __init__(self, action):
threading.Thread.__init__(self)
self.action = action
def run(self):
self.action()
###
app = Flask(__name__)
app.config['SECRET_KEY'] = 'you-will-never-guess'
dbdir='../FacilityData.db'
tare_file='../tare.xml'
kg2lb=2.20462
numsamples = 3000
numMaxSamples=5002
all_response = [0]
all_tares = []
all_times, all_temps, all_hums, all_ln2s = [[]], [[]], [[]], [[]]
def send_email(update):
# configure mail
smtp_server = "outlook.office365.com"
#sender_email = "kriosd3486@nysbc.org"
sender_email = "raspberrypi-alerts@nysbc.org"
receiver_email = ["malink@nysbc.org"]
#input("Type your password and press enter: ")
password = ""
# Create a secure SSL context
context = ssl.create_default_context()
text = """
This email update is html only
"""
html = update
message = MIMEMultipart(
"alternative", None, [MIMEText(text), MIMEText(html,'html')])
message['Subject'] ="Daily update " # +time.strftime("%m/%d/%y", time.localtime(time.time() ))
#Try to log in to server and send email
try:
server = smtplib.SMTP(smtp_server,port)
server.ehlo() # Can be omitted
server.starttls(context=context) # Secure the connection
server.ehlo() # Can be omitted
server.login(sender_email, password)
# Send email here
server.sendmail(sender_email, receiver_email, message.as_string())
except Exception as e:
# Print any error messages to stdout
print(e)
finally:
server.quit()
########
def oldest(microscopefolder):
files = os.listdir(microscopefolder) # all files in full directory
files = [f for f in files if f[0:6] == 'Health']
if len(files)>0: # one update needs 3 logs available
paths = [os.path.join(microscopefolder, basename) for basename in files]
return min(paths, key=os.path.getctime) # return oldest log file
else:
return ''
def csv_reader(file_name):
for row in open(file_name, "r"):
yield row
def look4log(nr):
updated = False
path = os.getcwd() + '/uptime/'
pathpub = '/home/pi/Public'
foldername = systemserialnr( 'k'+str(nr) ) # lookup system folder name
microscopefolder = os.path.join(pathpub, foldername) # lookup full directory
file = oldest(microscopefolder) # oldest file moved first and gets overwritten
# get three latest files
while len(file):
#for c in range(3):
updated = True
os.chown(file, 1000, 1000) # change ownership and group to pi (UID = 1000)
csv_gen = csv_reader(file)
for r in range(9): # get rid of 7 toplines, return 8th line
test = (csv_gen.__next__())
if ( 'Holder Temperature' in test):
os.rename(file, 'uptime/k'+str(nr)+'Cryo.csv')
elif ('Nominal Magnification' in test ):
os.rename(file, 'uptime/k'+str(nr)+'ColMag.csv')
else:
os.rename(file, 'uptime/k'+str(nr)+'Col.csv')
file = oldest(microscopefolder) # oldest file moved first and gets overwritten
time.sleep(3)
return (updated)
def systemserialnr(argument):
switcher = {
'k1': '3486_TitanKriosG2',
'k2': '3570_TitanKriosG2',
'k3': '3663_TitanKriosG2',
'k4': '3848_TitanKriosG3i(3.1)',
'k5': '3846_TitanKriosG3i(3.1)',
'k6': '3855_TitanKriosG3i(3.1)',
'k7': '3889_KriosG4',
'k8': '9953149_Glacios'
}
return switcher.get(argument, '3486_TitanKriosG2')
def system_dnr(argument):
switcher = {
'k1': '3486',
'k2': '3570',
'k3': '3663',
'k4': '3848',
'k5': '3846',
'k6': '3855',
'k7': '3889',
'k8': '9953149'
}
return switcher.get(argument, '3486')
##########################################
def init_sensordata(system, numsamples):
dates, temps, hums, ln2s = [], [], [], []
succes = False
while not (succes):
try:
conn = sqlite3.connect(dbdir)
curs = conn.cursor()
curs.execute("SELECT * FROM Sensor_data WHERE system = (?) ORDER BY timestamp DESC LIMIT (?)", (system, numsamples))
data = curs.fetchall()
succes = True
except Error as e:
print('Database connection error: ' + str(e))
time.sleep(1)
succes = False
conn.close()
for row in reversed(data):
dates.append(row[0])
temps.append(row[3])
hums.append(row[4])
ln2s.append(row[5])
return dates, temps, hums, ln2s
def init_pHdata(system, numsamples):
dates, temps, pHs = [], [], []
succes = False
while not (succes):
try:
conn = sqlite3.connect(dbdir)
curs = conn.cursor()
curs.execute("SELECT * FROM Sensor_data WHERE system = (?) ORDER BY timestamp DESC LIMIT (?)", (system, numsamples*10))
data = curs.fetchall()
succes = True
except Error as e:
print('Database connection error: ' + str(e))
time.sleep(1)
succes = False
conn.close()
counter = 0
for row in reversed(data):
if not(counter % 10): #make time scale 10 larger by only selecting every 10th entry. At some point aver needed
dates.append(row[0])
temps.append(row[3])
pHs.append(row[4])
#ln2s.append(row[5])
counter +=1
return dates, temps, pHs
def new_sensordata(system, start):
dates, temps, hums, ln2s = [], [], [], []
succes = False
while not (succes):
try:
conn = sqlite3.connect(dbdir)
curs = conn.cursor()
curs.execute("SELECT * FROM Sensor_data WHERE timestamp > (?) AND system = (?) ORDER BY timestamp DESC", (start, system))
data = curs.fetchall()
succes = True
except Error as e:
print('Database connection error: ' + str(e))
time.sleep(1)
succes = False
conn.close()
for row in reversed(data):
dates.append(row[0])
temps.append(row[3])
hums.append(row[4])
ln2s.append(row[5])
return dates, temps, hums, ln2s
######################################
def getSensorData(index, numsamples):
times = all_times[index][-int(numsamples):]
temps = all_temps[index][-int(numsamples):]
hums = all_hums[index][-int(numsamples):]
ln2s = all_ln2s[index][-int(numsamples):]
return times, temps, hums, ln2s
@app.route('/')
def tare():
global all_tares
numsamples = 3000
day = time.localtime(time.time()).tm_mday
del(all_tares[:])
with open (tare_file,"r") as fo:
str_tares=fo.read()
listed_tares=str_tares.split("</k")
for i, sep_tare in enumerate (listed_tares):
if(sep_tare[-3:].isnumeric()):
all_tares.append(int(sep_tare[-3:]))
times, temp, hum, ln2s = getSensorData(10, 1) # latest tem / hum from rasp 1
timestr = time.strftime('%X ',time.localtime(int(times[0])))
templateData = {
'time' : timestr,
'temp' : temp,
'hum' : hum,
'numsamples': numsamples
}
for k in range(1, 9):
templateData['tarek'+str(k)] = all_tares[k]
templateData['nettk'+str(k)] = all_ln2s[k][-1]-all_tares[k]
templateData['downk'+str(k)] = down_krios[k][day]
return render_template('index.html', **templateData)
@app.route('/', methods=['POST'])
def tare_form_post():
global numsamples, all_tares
day = time.localtime(time.time()).tm_mday
numsamples = int (request.form['numsamples'])
numMaxSamples = 5001
if (numsamples > numMaxSamples):
numsamples = (numMaxSamples-1)
# get tares
for k in range(1, 9):
all_tares[k]= int(request.form['tarek'+str(k)])
# save updated tares from website to tare.xml
with open (tare_file, "w") as fo:
for i, tare in enumerate(all_tares):
tare_str='<krios'+str(i)+'>'+str(tare)+'</krios'+str(i)+'>\n'
fo.write(tare_str)
times, temp, hum, ln2s = getSensorData(10, 1) # latest tem / hum from rasp 1
timestr = time.strftime('%X ',time.localtime(int(times[0])))
templateData = {
'time' : timestr,
'temp' : temp,
'hum' : hum,
'numsamples' : numsamples
}
for k in range(1, 9):
templateData['tarek'+str(k)] = all_tares[k]
templateData['nettk'+str(k)] = all_ln2s[k][-1]-all_tares[k]
templateData['downk'+str(k)] = down_krios[k][day]
return render_template('index.html', **templateData)
@app.route('/live')
def live():
numsamples = 3000
day = time.localtime(time.time()).tm_mday
scope = str((time.localtime(time.time()).tm_sec % 8) + 1)
times, temp, hum, ln2s = getSensorData(10, 1) # latest tem / hum from rasp 1
timestr = time.strftime('%X ',time.localtime(int(times[0])))
def update_link(argument):
switcher = {
1 : ( 'y', 'jg1', 'graph/ln2k1', '/emi/emik1', '/graph/tempk1', '/graph/humk1', '/graph/pHk21', '', ''),
2 : ( 'y', 'jg2', 'graph/ln2k2', '/emi/emik2', '/graph/tempk2', '/graph/humk2', '/graph/pHk22', '', ''),
3 : ( 'y', 'jg3', 'graph/ln2k3', '/emi/emik3', '/graph/tempk3', '/graph/humk3', '/graph/pHk23', '', ''),
4 : ( 'y', 'jg4', 'graph/ln2k4', '/emi/emik4', '/graph/tempk4', '/graph/humk4', '/graph/pHk24', '', ''),
5 : ( 'y', 'jg5', 'graph/ln2k5', '/emi/emik5', '/graph/tempk5', '/graph/humk5', '/graph/pHk25', '', ''),
6 : ( 'y', 'jg6', 'graph/ln2k6', '/emi/emik6', '/graph/tempk6', '/graph/humk6', '/graph/pHk26', '', ''),
7 : ( 'y', 'jg7', 'graph/ln2k7', '/emi/emik7', '/graph/tempk7', '/graph/humk7', '/graph/pHk27', '', ''),
8 : ( 'y', 'jg8', 'graph/ln2k8', '/emi/emik6', '/graph/tempk8', '/graph/humk8', '/graph/pHk28', '', ''),
9 : ( 'n', '/plot/bars/k1', '/plot/pie/k1', '/plot/bars/k2', '/plot/pie/k2', '/plot/bars/k3', '/plot/pie/k3', '/plot/bars/k4', '/plot/pie/k4'),
10 : ( 'n', '/plot/bars/k5', '/plot/pie/k5', '/plot/bars/k6', '/plot/pie/k6', '/plot/bars/k7', '/plot/pie/k7', '/plot/bars/k8', '/plot/pie/k8')
}
arg = int((time.localtime(time.time()).tm_min % 10) + 1)
# lookup all links
return switcher.get(arg, 1)
link1, link2, link3,link4, link5, link6, link7, link8, link9 = update_link(1)
templateData = {
'time' : timestr,
'temp' : temp,
'hum' : hum,
'scope' : scope,
'link1' : link1,
'link2' : link2,
'link3' : link3,
'link4' : link4,
'link5' : link5,
'link6' : link6,
'link7' : link7,
'link8' : link8,
'link9' : link9,
'numsamples': numsamples
}
for k in range(1, 9):
templateData['nettk'+str(k)] = all_ln2s[k][-1]-all_tares[k]
templateData['downk'+str(k)] = down_krios[k][day]
return render_template('live.html', **templateData)
@app.route('/login', methods=['GET', 'POST'])
def login():
user = {'username': 'Mike'}
posts = [
{
'author': {'username': 'John'},
'body': 'New York never sleeps!'
},
{
'author': {'username': 'Susan'},
'body': 'Hundred percent uptime, zero stress!'
}
]
form = LoginForm()
#form.username.data = 'Michael is here'
if form.validate_on_submit():
flash('Login requested for user {}, remember_me={}'.format(
form.username.data, form.remember_me.data))
return redirect('/uptime')
return render_template('login.html', title='Sign In', form=form, user=user, posts=posts)
from forms import PostForm
@app.route('/calls/<req>', methods=['GET'])
@app.route('/calls/<req>/', methods=['GET'])
def calls_get(req):
global all_status, all_steps
day = time.localtime(time.time()).tm_mday
system = int(req)
microscope = lookup_microscope('k'+req)
path = os.path.join(os.getcwd(), 'Appdata/')
call = all_status[system][day]
step = all_steps[system][day]
form = PostForm()
form.call.data = call
form.step.data = step
update = {'system': microscope,
'down' : True * down_krios[system][day]
}
return render_template("calls.html", title='calls Page', form=form, update = update)
@app.route('/calls/<req>', methods=['POST'])
@app.route('/calls/<req>/', methods=['POST'])
def calls(req):
global all_status, all_steps
# all_status is current status on overview page, all_steps: all next steps
day = time.localtime(time.time()).tm_mday
month = time.localtime(time.time()).tm_mon
system = int(req)
microscope = lookup_microscope('k'+req)
path = os.path.join(os.getcwd(), 'Appdata/')
call = all_status[system][day]
step = all_steps[system][day]
form = PostForm()
if form.validate_on_submit():
call = form.call.data
if len(call)>0:
for d in range(day,32):
# make sure all status data is copied to next days.
all_status[system][d] = call #.replace('\n',' ')
step = form.step.data
if len(step)>0:
for d in range(day,32):
# make sure all steps data is copied to next days.
all_steps[system][d] = step #.replace('\n',' ')
data2file(all_status, path + lookup_month(month) +'_calls_krios.csv')
data2file(all_steps, path + lookup_month(month) +'_steps_krios.csv')
return redirect('/uptime')
update = {'system': microscope,
'down' : True * down_krios[system][day]
}
return render_template("calls.html", title='calls Page', form=form, update = update)
@app.route('/toggle/<system>/<status>/')
def toggle(system, status):
# this route allows toggling up / down status of systems
# all routes lead to /toggle template
# the <system> variable decides which system to toggle
# the <status> variable decided if is will go up or down
day = time.localtime(time.time()).tm_mday
microscope_name = lookup_microscope(system)
microscope_nr = int(system[-1])
month = month_krios[microscope_nr]
## if (status == 'down'):
## # e.g. 1 in case the system is down on a day
## for d in range(day, 32):
## down_krios[microscope_nr][d] = 1
## else:
## for d in range(day, 32):
## down_krios[microscope_nr][d] = 0
timestr = time.strftime('%X ',time.localtime(int(time.time())))
templateData = {
'time' : timestr
}
for k in range(1, 9):
templateData['downk'+str(k)] = down_krios[k][day]
data2file(down_krios, lookup_month(month) +'_down_krios.csv')
return render_template('toggle.html', **templateData)
@app.route('/graph/<req>')
#htempk1
def plot_sensor(req):
times, ys, title = lookup_graph(req) #retrieve sensor data
times = times[-numsamples:]
ys = ys[-numsamples:]
newnumsamples = len(ys)
xs=range(len(ys))
fig = Figure()
axis = fig.add_subplot(1, 1, 1)
axis.set_title(title) # + " - now: %d\n " % (ys[(len(ys)-1)])) #tare: %d kg --- %d lb." % (all_tares[1]/2.20, all_tares[1]))
axis.grid(True)
N=newnumsamples/6
axis.xaxis.set_major_locator(MultipleLocator(N))
axis.tick_params(width=5)
for tick in axis.get_xticklabels():
tick.set_rotation(15)
time1 = time.strftime( '%b %d - %H:%M', time.localtime(times[0]) )
time2 = time.strftime( '%H:%M', time.localtime(times[int(0.167*len(times))] ))
time3 = time.strftime( '%H:%M', time.localtime(times[int(0.333*len(times))] ))
time4 = time.strftime( '%b %d - %H:%M', time.localtime(times[int(0.5*len(times))] ))
time5 = time.strftime( '%H:%M', time.localtime(times[int(0.667*len(times))] ))
time6 = time.strftime( '%H:%M', time.localtime(times[int(0.833*len(times))] ))
time7 = time.strftime( '%b %d - %H:%M', time.localtime(times[len(times)-1] ))
axis.set_xticklabels([' ', time1, time2, time3, time4, time5, time6, time7 ])
axis.plot(xs, ys)
canvas = FigureCanvas(fig)
output = io.BytesIO()
canvas.print_png(output)
response = make_response(output.getvalue())
response.mimetype = 'image/png'
#Fall_response=[]
#all_response.append(response)
return response
@app.route('/emi/')
@app.route('/emi')
def emi():
return render_template('emi.html')
@app.route('/emi/<req>')
#emi/emik1
def plot_threecurves(req):
times, curve1, title = lookup_graph(req+'x') #retrieve sensor data
times, curve2, title2 = lookup_graph(req+'y') #retrieve sensor data
times, curve3, title = lookup_graph(req+'z') #retrieve sensor data
times = times[-numsamples:]
curve1 = curve1[-numsamples:]
curve2 = curve2[-numsamples:]
curve3 = curve3[-numsamples:]
newnumsamples = len(times)
xs=range(len(times))
fig = Figure()
axis = fig.add_subplot(1, 1, 1)
axis2 = fig.add_subplot(1, 1, 1)
axis3 = fig.add_subplot(1, 1, 1)
fig.legend()
axis.set_title(title ) # + " - now: %d\n " % (ys[(len(ys)-1)])) #tare: %d kg --- %d lb." % (all_tares[1]/2.20, all_tares[1]))
#axis.set_xlabel("Samples")
axis.grid(True)
N=newnumsamples/6
axis.xaxis.set_major_locator(MultipleLocator(N))
axis.tick_params(width=5)
for tick in axis.get_xticklabels():
tick.set_rotation(15)
time1 = time.strftime( '%b %d - %H:%M', time.localtime(times[0]) )
time2 = time.strftime( '%H:%M', time.localtime(times[int(0.167*len(times))] ))
time3 = time.strftime( '%H:%M', time.localtime(times[int(0.333*len(times))] ))
time4 = time.strftime( '%b %d - %H:%M', time.localtime(times[int(0.5*len(times))] ))
time5 = time.strftime( '%H:%M', time.localtime(times[int(0.667*len(times))] ))
time6 = time.strftime( '%H:%M', time.localtime(times[int(0.833*len(times))] ))
time7 = time.strftime( '%b %d - %H:%M', time.localtime(times[len(times)-1] ))
axis.set_xticklabels([' ', time1, time2, time3, time4, time5, time6, time7 ])
axis.plot(xs, curve1)
axis2.plot(xs, curve2)
axis3.plot(xs, curve3)
canvas = FigureCanvas(fig)
output = io.BytesIO()
canvas.print_png(output)
response = make_response(output.getvalue())
response.mimetype = 'image/png'
#all_response=[]
#all_response.append(response)
return response
def system_status(timestr):
print(" === Daily system status update ===")
global all_status, all_steps
updatestart = time.time()
day = time.localtime(time.time()).tm_mday
# part for slack
width = 12 # table cel width
slacktext= time.strftime( '\n Update %D - %I:%M %p \n', time.localtime(updatestart ))
line = '\n'
line += ' '.ljust(width,'=')
line += ' '.ljust(width,'=')
line += ' '.ljust(width,'=')
line += '\n'
slacktext += line
width += 7 # spaces force more cel width
slacktext += ' System'.ljust(width,' ')
slacktext += ' Weight (lb.)'.ljust(width,' ')
slacktext += ' days'.ljust(width,' ')
slacktext += line
slacktext += '\n'
width += 2 # numbers have lost of space so increase
## email update html
html = """<html><head><style>
table {font-family: arial, sans-serif; border-collapse: collapse; width: 100%;}
td, th {border: 1px solid #dddddd; text-align: left; padding: 8px;}
</style></head><body>
<h2>SEMCi daily system status </h2>"""
html+= time.strftime( '<h4>Update %D - %I:%M %p </h4>', time.localtime(updatestart ))
html+="""<table><thead><tr>
<th>Equipment</th>
<th>Status</th>
<th>days</th>
<th> details </th>
</tr></thead><tbody>"""
#numSamples = 24*60 # 24 hour moving average for tem - hum
warnings=[]
warnings.append("\n\n")
for i in range(1,9): # Krios 1 - 7 , Krios 8 = Glacios
down = down_krios[i][day]
if down:
days = down_krios[i][1:day+1].count(1) # number of down days this month
else:
days = down_krios[i][1:day+1].count(0) # number of up days this month
#start of new table row
html += '<tr>'
# Column system name
if i == 8:
system = 'Glacios'
else:
system = 'Krios ' + str(i)
html+= '<td>' + system + '</td>'
slacktext += (' '+system).ljust(width,' ')
# Column status up/down
if down:
html+= '<td style="background-color:#FFECD9" > down </td>'
slacktext += ' down'.ljust(width,' ')
else:
html+= '<td style="background-color:#E7FFD9" > up </td>' #CCF5B5
#html+= """<td> up </td>"""
slacktext += ' up'.ljust(width,' ')
# Column days
html+= '<td>' + str(days) + '</td>'
slacktext += str(days).ljust(width,' ')
# Column details
width = 12
html+= '<td>' + all_status[i][day] + '</td>'
slacktext += all_status[i][day].ljust(width,' ')
html += '</tr>'
html+= '</tbody></table>'
html += 'Note: days indicate current number of days the system has been up/down this month <br>'
html += '<br><br><h3>Overview: </h3>'
#issues
# all Krios
for i in range(1,9):
html += '<p>'
html += '<h3>'
if (i==8):
system = 'Glacios'
else:
system = 'Krios ' + str(i)
html += system + ': <br>'
html += '</h3>'
html += 'Status: ' + all_status[i][day] + '<br>'
html += 'Next steps: '+ all_steps[i][day] + '<br>'
html += '</p>'
return (html)
@app.route('/uptime')
@app.route('/uptime/')
def uptime():
global all_status, all_steps
updates = []
timestr = time.strftime('%X ',time.localtime(int(time.time())))
day = time.localtime(time.time()).tm_mday
# all Krios
for i in range(1,8):
updates.append(
{
'system': 'Krios '+ str(i),
'down': True * down_krios[i][day],
'status': all_status[i][day],
'step': all_steps[i][day],
'link': '/calls/'+str(i)
}
)
# glacios
updates.append(
{
'system': 'Glacios',
'down': True * down_krios[8][day],
'status': all_status[8][day],
'step': all_steps[8][day],
'link': '/calls/'+str(8)
}
)
templateData = {'time' : timestr }
message = system_status(timestr)
send_email(message)
return render_template('uptime.html', **templateData, updates = updates)
@app.route('/uptime/<month>')
def uptime_hist(month):
pathpub = '/home/pi/Public'
if month in ['January', 'February', 'March', 'April', 'May', 'June', 'July', 'August']:
path = 'uptime_' + month + '.html'
else:
path = 'uptime.html'
timestr = time.strftime('%X ',time.localtime(int(time.time())))
templateData = {
'month' : month,
'time' : timestr
}
return render_template(path, **templateData)
####################################################################
@app.route('/plot/pie/<req>')
def plot_pie(req):
microscope_name = lookup_microscope(req)
microscope_nr = int(req[-1])
down = down_krios[microscope_nr]
sum_down= sum(down)*86400
for day in range(1, 32):
if down[day] == 1:
cryo_krios[microscope_nr][day] = closed_krios[microscope_nr][day] = mag_krios[microscope_nr][day] = open_krios[microscope_nr][day] = 1
sum_cryo= sum(cryo_krios[microscope_nr])
sum_closed= sum(closed_krios[microscope_nr])
sum_standby = sum_closed - sum_cryo
sum_open= sum(open_krios[microscope_nr])
sum_mag = sum(mag_krios[microscope_nr])
sum_engineering= sum_open - sum_mag + 172800
month_name = lookup_month( month_krios[microscope_nr] )
# Pie chart, where the slices will be ordered and plotted counter-clockwise:
labels = 'Cryocycle time', 'Standby time', 'Collecting data', 'Maintenance time', 'Engineering time'
sizes = [sum_cryo, sum_standby, sum_mag, sum_down, sum_engineering]
explode = (0.1, 0.1, 0.1, 0.1, 0.1) # explode all slices by 10%
fig = Figure()
axis = fig.add_subplot(1, 1, 1)
axis.set_title(microscope_name+'\nUptime graph '+ month_name +' 2021')
colors = ['orange', 'grey', 'limeGreen', 'brown', 'cyan', 'lime'] #
axis.pie(sizes, explode=explode, labels=labels, autopct='%1.1f%%',
shadow=True, startangle=180)
axis.axis('equal') # Equal aspect ratio ensures that pie is drawn as a circle.
canvas = FigureCanvas(fig)
# save pie picture each system each month in archive
path = os.path.join(os.getcwd(), 'static', 'images', month_name)
if not os.path.exists(path):
os.mkdir(path)
fig.savefig(path + '/k'+ str(microscope_nr) + 'pie.png')
output = io.BytesIO()
canvas.print_png(output)
response = make_response(output.getvalue())
response.mimetype = 'image/png'
return response
####################################################################
@app.route('/plot/bars/<req>')
def plot_bars(req):
microscope_name = lookup_microscope(req)
microscope_nr = int(req[-1])
month_name = lookup_month( month_krios[microscope_nr] )
sum_cryo = cryo_krios[microscope_nr]
cryo_perc = [y/864 for y in sum_cryo]
num_days = len(sum_cryo)
sum_closed = closed_krios[microscope_nr]
closed_perc= [y/864 for y in sum_closed]
standby_perc = [ ( closed_perc[t] - cryo_perc[t] ) for t in range( num_days) ]
sum_open = open_krios[microscope_nr]
open_perc= [y/864 for y in sum_open]
sum_mag = mag_krios[microscope_nr]
mag_perc= [y/864 for y in sum_mag]
engineering_perc = [ ( open_perc[t] - mag_perc[t] ) for t in range( num_days) ]
engineering_bottom= [ (closed_perc[t] + mag_perc[t]) for t in range( num_days) ]
sum_down = down_krios[microscope_nr]
down_perc= [y/864 for y in sum_down]
for day in range(1, 32):
if sum_down[day] == 1:
down_perc[day] = 100
cryo_perc[day] = standby_perc[day] = mag_perc[day] = engineering_perc[day] = 0
else:
down_perc[day] = 0
labels = range( num_days ) # dates
width = 0.5 # the width of the bars: can also be len(x) sequence
fig = Figure()
axis = fig.add_subplot(1, 1, 1)
axis.bar(labels, cryo_perc, width, label='Cryocycle Time')
axis.bar(labels, standby_perc, width, bottom=cryo_perc, label='Standby Time')
axis.bar(labels, mag_perc, width, bottom=closed_perc, label='Collecting data')
axis.bar(labels, down_perc, width, label='Maintenance Time')
axis.bar(labels, engineering_perc, width, bottom=engineering_bottom, label='Engineering time')
axis.set_ylabel('Percentage')
axis.legend(loc='center left')
axis.set_title(microscope_name + "\nDaily breakdown "+ month_name)
axis.grid(True)
if microscope_nr == 7:
axis.annotate('N400558: Autoloader\n un-initialize',
xy=(1, 5), xycoords='data', xytext=(5, 10), textcoords='data',
bbox=dict(boxstyle="round", fc="0.8"),
arrowprops=dict(arrowstyle="->",connectionstyle="angle,angleA=0,angleB=90,rad=10"))
if microscope_nr == 8:
axis.annotate('N400993 \n Gun align',
xy=(8, 5), xycoords='data', xytext=(12, 10), textcoords='data',
bbox=dict(boxstyle="round", fc="0.8"),
arrowprops=dict(arrowstyle="->",connectionstyle="angle,angleA=0,angleB=90,rad=10"))
canvas = FigureCanvas(fig)
# save bars picture each system each month in archive
path = os.path.join(os.getcwd(), 'static', 'images', month_name)
if not os.path.exists(path):
os.mkdir(path)
fig.savefig(path + '/k'+ str(microscope_nr) + 'bars.png')
output = io.BytesIO()
canvas.print_png(output)
response = make_response(output.getvalue())
response.mimetype = 'image/png'
return response
##########################################################################################
@app.route('/plot/thruput/<req>')
def plot_thruput(req):